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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCTCCTTCGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaaaaatgaatgtttattttttatatataaaaaaatagcaacattaaaaggtttaattgtgtacagatttggatgtatggtattctgatgaag...

Basic information

species Glycine max
transcript GLYMA16G24140.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G24140.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G047590_T02 (Zea mays), 5'ss of exon 2
AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCTCCTTCGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagt-cgaaaaatgaatgtttattttttatatataaaaaaatagcaacattaaaaggtttaattgtgtacagatttggatgtatggtattctgatgaag-
   || ||||||||| | ||||| || ||  |   |   ||||||||| ||||  |      |||||| |||||||| ||||||||||| ||||| |||||||||| |        ||    || | || | ||          | | | ||  |     |   | | ||     ||| | ||   |||    || |   | 
CGCGCGCTCCGCGACCAGATCGTCTCCGGTGACCGCGAGTTCGAGGACGTCGCTGCCGAGAACTCCGACTGCAGCTCGGCCAAGCGCGGCGGTGACCTCGgtcagtgctccgtgctaaatcctactgttcaaatcctgctggccaactatat--accctctctgtagggtttgctttttggtgagcggttgaatggttgcgt

upper sequence: GLYMA16G24140.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv04s0023g03190.t01 (Vitis vinifera), 5'ss of exon 1
AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCTCCTTCGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaaaaatgaatgtttattttttatatataaaaaaatagcaacattaaaaggtttaattgtgtacagatttggatgtatggtattctgatgaag
|||||| | |||||||||||| |||| |||||  |    |||   ||| |||| ||||   |||||||||||||||| ||||||||||| || |||||||||| ||    | |    |  |   ||| | |   |        |      ||    | ||    | |  ||   |         | | || ||||  || 
AAGGCCATTCGCGACGACATCATTTCTGGCAAATCTAAGTTCTCCGACGTCGCTTCTCAAATCTCCGATTGCAGCTCTGCCAAGCGCGGCGGCGATCTCGgtcggtttttatagctctactctctttatcttcttctgttttgattggtttttttggattagggttttcactcctgccttctctttggatgctgagaaaa
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|4397603|gb|AI496600.1|AI496600
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|21676781|gb|BQ629132.1|BQ629132
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|9203743|gb|BE329967.1|BE329967
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAAATGCAGAGGCCTTTTGAAGAAGCAACTATGG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|208298748|gb|GE094187.1|GE094187
EST:     GCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: GCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254313941|gb|GR831570.1|GR831570
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|24136795|gb|BU927305.1|BU927305
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|6916140|gb|AW397670.1|AW397670
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|9258385|gb|BE346524.1|BE346524
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|58023507|gb|CX710248.1|CX710248
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|23733483|gb|BU764938.1|BU764938
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|15814191|gb|BI786466.1|BI786466
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCACAAGCCTTTTGAAGAAGCCACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|31467673|gb|CD409701.1|CD409701
EST:     GCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: GCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|208247063|gb|GE049463.1|GE049463
EST:     CGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|21601979|gb|BQ612310.1|BQ612310
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|6846685|gb|AW348975.1|AW348975
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|11274109|gb|BF324477.1|BF324477
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254334438|gb|GR844223.1|GR844223
EST:     CGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254332059|gb|GR846262.1|GR846262
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|27446270|gb|CA953393.1|CA953393
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|19270929|gb|BM887185.1|BM887185
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254345853|gb|GR859500.1|GR859500
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|20814845|gb|BQ299323.1|BQ299323
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254313942|gb|GR831571.1|GR831571
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|27446194|gb|CA953317.1|CA953317
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|4304999|gb|AI443699.1|AI443699
EST:     GCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCCCGGGGTGATCTCG                         GTCCTTTTGGTCG-GGCCAGATGCAGAAGCCT
genomic: GCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCG-GGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCT
EST: gi|13480532|gb|BG509875.1|BG509875
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGGCAGATGCAGAAGCCTTTTGAAGAAGCCACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298184503|gb|HO029716.1|HO029716
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254332060|gb|GR846263.1|GR846263
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254345854|gb|GR859501.1|GR859501
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|8669088|gb|BE190190.1|BE190190
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCT                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|7925712|gb|AW831738.1|AW831738
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|151400392|gb|EV270206.1|EV270206
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCTCCTTCGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGGGGTGATCTCGgtcagtcgaaaaatgaatgtttattttttatatataaaaaaatagcaacattaaaaggtttaattgtgtacagatttggatgtatggtattctgatgaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaaaa